7SLRNA
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000016 |
|---|---|
| TE superfamily | Alu |
| TE class | SINE |
| Species | Vertebrata_vertebrates |
| Length | 320 |
| Kimura value | 9.38 |
| Tau index | 0.7427 |
| Description | 7SL ncRNA gene / pseudogene |
| Comment | RNA component of the Signal Recognition Particle (SRP). 7SL RNA is the source of the Alu family of repeats. Human 7SL gene source: X04249.1:61-359. Note that the PolyA tail is not genomically encoded. |
| Sequence |
GCCGGGCGCGGTGGCGCGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCGGGAGGATCGCTTGAGCCCAGGAGTTCTGGGCTGTAGTGCGCTATGCCGATCGGGTGTCCGCACTAAGTTCGGCATCAATATGGTGACCTCCCGGGAGCGGGGGACCACCAGGTTGCCTAAGGAGGGGTGAACCGGCCCAGGTCGGAAACGGAGCAGGTCAAAACTCCCGTGCTGATCAGTAGTGGGATCGCGCCTGTGAATAGCCACTGCACTCCAGCCTGGGCAACATAGCGAGACCCCGTCTCTTAAAAAAAAAAAAAAAAAAAA
|
TF motifs of the concenus sequence
Use FIMO to detect transcription factor motifs in the concenus sequence of the TE family.
| TE_family | TFBS | Start | End | Strand | Score | Matched sequence |
|---|---|---|---|---|---|---|
| 7SLRNA | TCP4 | 154 | 161 | + | 15.98 | GGGACCAC |
| 7SLRNA | PK10344.1 | 154 | 161 | + | 15.74 | GGGACCAC |
| 7SLRNA | DOF5.1 | 301 | 319 | + | 15.65 | AAAAAAAAAAAAAAAAAAA |
| 7SLRNA | DOF5.1 | 302 | 320 | + | 15.65 | AAAAAAAAAAAAAAAAAAA |
| 7SLRNA | ZBTB6 | 62 | 70 | + | 15.31 | GCTTGAGCC |
| 7SLRNA | DOF3.6 | 298 | 318 | - | 15.30 | TTTTTTTTTTTTTTTTTTAAG |
| 7SLRNA | LjTCP20 | 154 | 161 | + | 15.13 | GGGACCAC |
| 7SLRNA | CG8319 | 134 | 143 | + | 15.08 | TGGTGACCTC |
| 7SLRNA | h | 13 | 22 | + | 14.94 | GGCGCGCGCC |
| 7SLRNA | h | 13 | 22 | - | 14.94 | GGCGCGCGCC |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
